Figure 1

Microarray analysis of differentially expressed genes in OV202NTC, Sh1, and Sh2 cells. (A) Unsupervised hierarchical clustering normalized expression values of 20,090 selected probe sets for NTC, Sh1, and Sh2. Each class is represented by three biological replicates. Red: expression values above the average across all samples; blue: expression values below the average across all samples. (B) Ingenuity pathway analysis of metabolic genes. The most statistically significant metabolic pathways identified in the confirmed cell-specific marker list are listed according to their p value (-Log) (blue bars) and the ratio of list genes found in each pathway over the total number of genes in that pathway (Ratio, orange squares). The threshold line corresponds to a pathway enrichment p value of 0.05. (C) Unsupervised hierarchical clustering normalized expression values of 271 selected lipid pathway related probe sets for NTC, Sh1, and Sh2. Each class is represented by three biological replicates. Red: expression values above the average across all samples; blue: expression values below the average across all samples. (D) The most differentially expressed lipid pathway related genes (73 of the 271 genes in A, FDR = <1%). The statistical difference was tested according to t test using ‘genefilter’ package in R, and multi hypothesis-testing corrected FDR was estimated using ‘fdrtool’ package in R. The black arrow indicates genes analyzed by real-time and/or western blot analysis in this study.